TissGDB
Tissglogo

Home

Download

 Statistics

 Landscape

Help

Contact

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

bullet point

TissGeneSummary

bullet point

TissGeneExp

bullet point

TissGene-miRNA

bullet point

TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

bullet point

TissGeneNet

bullet point

TissGeneProg

bullet point

TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CHRNA4
check button Gene summary
Basic gene informationGene symbolCHRNA4
Gene namecholinergic receptor, nicotinic, alpha 4 (neuronal)
SynonymsBFNC|EBN|EBN1|NACHR|NACHRA4|NACRA4
CytomapUCSC genome browser: 20q13.33
Type of geneprotein-coding
RefGenesNM_000744.6,
NM_001256573.1,NR_046317.1,
Descriptioncholinergic receptor, nicotinic, alpha polypeptide 4neuronal acetylcholine receptor subunit alpha-4neuronal nicotinic acetylcholine receptor alpha-4 subunit
Modification date20141222
dbXrefs MIM : 118504
HGNC : HGNC
Ensembl : ENSG00000101204
HPRD : 00333
Vega : OTTHUMG00000033080
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CHRNA4
BioGPS: 1137
PathwayNCI Pathway Interaction Database: CHRNA4
KEGG: CHRNA4
REACTOME: CHRNA4
Pathway Commons: CHRNA4
ContextiHOP: CHRNA4
ligand binding site mutation search in PubMed: CHRNA4
UCL Cancer Institute: CHRNA4
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)BrainLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)GBM,LGGLIHC
Reference showing the relevant tissue of CHRNA4
Description by TissGene annotationsProtective TissGene in RFS
Cancer gene
Fused withTSGene
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID
GO:0001666response to hypoxia12189247
GO:0007165signal transduction8906617
GO:0035094response to nicotine12189247
GO:0098655cation transmembrane transport8906617
GO:0001666response to hypoxia12189247
GO:0007165signal transduction8906617
GO:0035094response to nicotine12189247
GO:0098655cation transmembrane transport8906617


Top
TissGeneExp for CHRNA4

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LUAD-2.643630367-1.187275195-1.4563551721.54E-097.96E-09
LIHC1.376991155.06072115-3.683734.41E-083.37E-07
THCA-0.3915267143.125410574-3.5169372881.87E-152.56E-14
KIRC-2.3448565161.32608515-3.6709416673.89E-172.33E-16
KICH-3.190026851.07732115-4.2673482.77E-091.60E-08
KIRP-2.4916367252.857269525-5.348906254.21E-161.45E-14
ESCA-2.831187577-1.338778486-1.4924090910.004730.03832


Top
TissGene-miRNA for CHRNA4

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


Top
TissGeneMut for CHRNA4
TissGeneSNV for CHRNA4

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
bullet point


check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.A567VSTAD3
p.P361LPRAD2
p.G207NLUAD1
p.V325DSKCM1
p.R354HSKCM1
p.R513SLUSC1
p.I163VLUAD1
p.Q428RSKCM1
p.T324ALUAD1
p.P404LSKCM1
p.V287IHNSC1
p.A36TSTAD1
p.E569KLIHC1
p.C533RLGG1
p.T276MSTAD1
p.E373DLUAD1
p.A34SLUAD1
p.P102SSKCM1
p.F265SSTAD1
p.P393LESCA1
p.G207SLUAD1
p.T293ISKCM1
p.P404SSKCM1
p.P451LPAAD1
p.P253TCOAD1
p.E37KBLCA1
p.L63ITHYM1
p.S280FSKCM1
p.S473TLUAD1
p.R600HSTAD1
p.R566QKIRC1
p.I248MLUAD1
p.T276MCOAD1
p.E270KPAAD1
p.R336CSTAD1
p.V210FLUAD1
p.M605IHNSC1
p.S396RLUAD1
p.R549PLIHC1
p.V262MUCEC1
p.D164NBLCA1
p.R487WPAAD1
p.D496VCOAD1
p.R369WUCEC1
p.L617FLIHC1
p.C271YCOAD1
p.R333HBRCA1
p.L560MLIHC1
p.S300LBLCA1
p.M177ISKCM1
p.D75ELUAD1
p.I372VLGG1
p.P528LSKCM1
p.T337MESCA1
p.D164NCOAD1
p.W591*HNSC1
p.S284LSTAD1
p.G625DGBM1
p.A509TREAD1
p.F167VHNSC1
p.R53QLUAD1
p.T136ISKCM1
p.P494SSKCM1
p.R240QSARC1
p.V478MCOAD1
p.I275MSKCM1
p.R336HUCEC1
p.I163TKIRP1
p.P451LKIRP1
p.R333HLUAD1
p.G207DLUAD1
p.K140EUCEC1
p.N107SESCA1
p.A56VLIHC1
p.V212MUCEC1
p.S46FSKCM1
p.N174HSKCM1
p.A56SLUAD1
p.P523SSKCM1
p.N193SSKCM1
p.E37VLUAD1
p.R383HSTAD1
p.G616CLIHC1
p.I574TSKCM1
p.V615MSKCM1
p.P444HLUAD1
p.F348VLUAD1
p.R336HSTAD1
p.D497NSKCM1
p.S586LSKCM1
p.R221GHNSC1
p.S539LSTAD1
p.P10HUCEC1
p.P243STHYM1
p.N514SSKCM1
p.L355QKIRC1
p.D599NSKCM1
p.N174KLUSC1
p.R345CSARC1
p.D202VSARC1
p.F245LLUAD1
p.W604*SKCM1
p.D60ESTAD1
p.V165ICOAD1
p.T217SBRCA1
p.R197CREAD1
p.R485WBLCA1
p.P556TLUAD1
p.M194VKIRP1
p.T176ACOAD1
p.T234ALUAD1
p.W151LLUSC1
p.P562LSTAD1


Top
TissGeneCNV for CHRNA4

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


Top
TissGeneFusions for CHRNA4

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0ChiTaRsNAAW804554PRKCB-CHRNA4chr16:24175367chr20:61993559


Top
TissGeneNet for CHRNA4

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
COAD (tumor)COAD (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
HNSC (tumor)HNSC (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
KICH (tumor)KICH (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
KIRC (tumor)KIRC (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
KIRP (tumor)KIRP (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
LIHC (tumor)LIHC (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
LUAD (tumor)LUAD (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
LUSC (tumor)LUSC (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
PRAD (tumor)PRAD (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
STAD (tumor)STAD (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point
THCA (tumor)THCA (normal)
CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (tumor)CHRNA4, CSNK2B, UBQLN1, YWHAH, VSNL1, CHRNB4, CRELD2, CHRNB2 (normal)
bullet pointbullet point


Top
TissGeneProg for CHRNA4

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

Top
TissGeneClin for CHRNA4
TissGeneDrug for CHRNA4

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status
DB00514DextromethorphanAntagonistSmall moleculeApproved
DB00674GalantamineAllosteric modulatorSmall moleculeApproved
DB00849MethylphenobarbitalAntagonistSmall moleculeApproved
DB01174PhenobarbitalAntagonistSmall moleculeApproved
DB01354HeptabarbitalAntagonistSmall moleculeApproved
DB01355HexobarbitalAntagonistSmall moleculeApproved
DB00237ButabarbitalAntagonistSmall moleculeApproved|Illicit
DB00241ButalbitalAntagonistSmall moleculeApproved|Illicit
DB00306TalbutalAntagonistSmall moleculeApproved|Illicit
DB01351AmobarbitalAntagonistSmall moleculeApproved|Illicit
DB01352AprobarbitalAntagonistSmall moleculeApproved|Illicit
DB01353ButethalAntagonistSmall moleculeApproved|Illicit
DB01273VareniclinePartial agonistSmall moleculeApproved|Investigational
DB09028CytisineAgonistSmall moleculeApproved|Investigational
DB00312PentobarbitalAntagonistSmall moleculeApproved|Vet_approved
DB00418SecobarbitalAntagonistSmall moleculeApproved|Vet_approved
DB00599ThiopentalAntagonistSmall moleculeApproved|Vet_approved
DB00794PrimidoneAntagonistSmall moleculeApproved|Vet_approved


Top
TissGeneDisease for CHRNA4

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C3696898Autosomal Dominant Nocturnal Frontal Lobe Epilepsy41BeFree
umls:C0028043Nicotine Dependence26BeFree
umls:C0014544Epilepsy17BeFree,GAD
umls:C0085541Epilepsy, Frontal Lobe15BeFree,CTD_human,GAD,LHGDN
umls:C0242379Malignant neoplasm of lung14BeFree
umls:C0684249Carcinoma of lung14BeFree
umls:C1263846Attention deficit hyperactivity disorder11BeFree,CTD_human,GAD
umls:C0220669Familial benign neonatal epilepsy9BeFree
umls:C0002395Alzheimer's Disease8BeFree,GAD,LHGDN
umls:C0036341Schizophrenia8BeFree,GAD,LHGDN
umls:C0014547Epilepsies, Partial7BeFree
umls:C0040336Tobacco Use Disorder7GAD
umls:C0007131Non-Small Cell Lung Carcinoma6BeFree
umls:C0036572Seizures6BeFree,CTD_human
umls:C0001973Alcoholic Intoxication, Chronic4BeFree,GAD
umls:C0004936Mental disorders4BeFree
umls:C0014548Epilepsy, Generalized4BeFree,LHGDN
umls:C0270850Idiopathic generalized epilepsy4BeFree
umls:C0270853Myoclonic Epilepsy, Juvenile4BeFree,GAD
umls:C0391957idiopathic epilepsy4BeFree
umls:C0497327Dementia4BeFree,LHGDN
umls:C0011265Presenile dementia3BeFree
umls:C0027765nervous system disorder3BeFree,CTD_human
umls:C0003469Anxiety Disorders2BeFree
umls:C0003886Arthrogryposis2BeFree
umls:C0007102Malignant tumor of colon2BeFree
umls:C0011570Mental Depression2BeFree
umls:C0011581Depressive disorder2BeFree
umls:C0024117Chronic Obstructive Airway Disease2BeFree,GAD
umls:C0030567Parkinson Disease2GAD
umls:C0040332Tobacco Dependence2BeFree,CLINVAR
umls:C0265482Ring Chromosome 20 Syndrome2BeFree
umls:C0338656Impaired cognition2BeFree
umls:C0596263Carcinogenesis2BeFree
umls:C0699790Colon Carcinoma2BeFree
umls:C0751882Myasthenic Syndromes, Congenital2BeFree
umls:C1838049Epilepsy, Nocturnal Frontal Lobe, Type 12CLINVAR,CTD_human,UNIPROT
umls:C1851759ELECTROENCEPHALOGRAPHIC VARIANT PATTERN 1 (disorder)2BeFree
umls:C1862941Amyotrophic Lateral Sclerosis, Sporadic2BeFree
umls:C0001418Adenocarcinoma1BeFree
umls:C0004352Autistic Disorder1CTD_human,LHGDN
umls:C0005684Malignant neoplasm of urinary bladder1BeFree
umls:C0006142Malignant neoplasm of breast1BeFree
umls:C0007137Squamous cell carcinoma1BeFree
umls:C0008073Developmental Disabilities1CTD_human
umls:C0009241Cognition Disorders1BeFree
umls:C0009952Febrile Convulsions1BeFree,GAD
umls:C0011615Dermatitis, Atopic1BeFree
umls:C0011847Diabetes1BeFree
umls:C0011849Diabetes Mellitus1BeFree
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent1BeFree
umls:C0012860DNA Damage1GAD
umls:C0013080Down Syndrome1LHGDN
umls:C0013146Drug abuse1BeFree
umls:C0013421Dystonia1CTD_human
umls:C0013595Eczema1BeFree
umls:C0018801Heart failure1RGD
umls:C0019693HIV Infections1BeFree
umls:C0024623Malignant neoplasm of stomach1BeFree
umls:C0026106Mild Mental Retardation1BeFree
umls:C0026896Myasthenia Gravis1BeFree
umls:C0028754Obesity1BeFree
umls:C0030319Panic Disorder1BeFree,GAD
umls:C0033054Prenatal Exposure Delayed Effects1GAD
umls:C0038644Sudden infant death syndrome1BeFree
umls:C0041696Unipolar Depression1BeFree
umls:C0043094Weight Gain1GAD
umls:C0085084Motor Neuron Disease1GAD
umls:C0085400Neurofibrillary degeneration (morphologic abnormality)1BeFree
umls:C0087169Withdrawal Symptoms1BeFree
umls:C0149782Squamous cell carcinoma of lung1BeFree
umls:C0149925Small cell carcinoma of lung1BeFree
umls:C0150055Chronic pain1BeFree
umls:C0233794Memory impairment1BeFree
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0311277Obesity, Abdominal1BeFree
umls:C0333463Senile Plaques1BeFree
umls:C0339789Congenital deafness1BeFree
umls:C0344307Absence of pain sensation1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0393719Nocturnal epilepsy1BeFree
umls:C0424101Inattention1BeFree
umls:C0678222Breast Carcinoma1BeFree
umls:C0687132heavy drinking1BeFree
umls:C0699791Stomach Carcinoma1BeFree
umls:C0699885Carcinoma of bladder1BeFree
umls:C0751785Unverricht-Lundborg Syndrome1BeFree
umls:C0752347Lewy Body Disease1BeFree
umls:C1168401Squamous cell carcinoma of the head and neck1BeFree
umls:C1269683Major Depressive Disorder1BeFree
umls:C1270972Mild cognitive disorder1BeFree
umls:C1458155Mammary Neoplasms1BeFree
umls:C1720983Channelopathies1BeFree
umls:C1842981NEUROTICISM1BeFree
umls:C1852581EPILEPSY, BENIGN NEONATAL, 21BeFree
umls:C2911647Weight Gain Adverse Event1GAD
umls:C4042891Sleep Wake Disorders1CTD_human
umls:C1861063TOBACCO ADDICTION, SUSCEPTIBILITY TO (finding)0CTD_human